Zr-based bulk metallic glass (BMG) has outstanding mechanical, physical and chemical characteristics compared to currently used biomaterials such as stainless steel, titanium and cobalt based alloys. However, BMG is characterized by low hardness and bio-inert native oxide surface. Therefore, it does not allow tissue growth and cell adhesion when implanted into the host body. This study, attempts to improve the surface quality of Zr-based BMG by suspending a bioactive hydroxyapatite powder in the dielectric fluid during the electro discharge machining (EDM) process. Field Emission Scanning Electron Microscopy (FESEM) and Mitutoyo roughness tester were used to study the surface morphology and the surface topography of the machined surface. The BMG surface hardness measured by Rockwell machine at 150 kgf load raised from 49.9 HRC to 85.5 HRC. The EDS spectrum revealed the formation of HA-rich layer deposited on the HA-EDMed BMG surface. A crack-free HA-EDMed surface, with some shallow craters and numerous nanopores was achieved. The surface roughness increased with increase in peak current and pulse duration and decreases when HA powder concentration increases. The lowest surface roughness of 1.976 μm were achieved at the current of 5 A and duration of 4 μs. © 2018 Author(s).